Discovery of soybean cyst nematode resistance genes based on epigenetic analysis

Patent metadata

Field	Value
Publication number	US-2022033841-A1
Application number	US-201917278346-A
Country	US
Kind code	A1
Filing date	Sep 27, 2019
Priority date	Sep 27, 2018
Publication date	Feb 3, 2022
Grant date	—

Abstract

The invention relates to genes which may be utilized to induce resistance to soybean cyst nematode (SCN). More specifically the present disclosure provides genes that, when inactivated or overexpressed in a plant, particularly, a soybean plant, can confer upon the plant resistance to SCN. Methods of using these genes to obtain plants, particularly, soybean plants, that are resistant to SCN are also provided.

First claim

1 - 32 . (canceled)

33 . A plant cell comprising an overexpressed or inactivated gene, wherein the overexpressed or inactivated gene comprises a protein coding sequence and/or its homologue selected from SEQ ID NOs: 1 to 209 or homologs thereof.

34 . The plant cell of claim 33 , wherein the plant cell comprises:
i) in the endogenous promoter of the gene one or more mutations that increase the expression of the gene; ii) a heterologous nucleic acid comprising the gene; iii) one or more mutations in the endogenous promoter of the gene that inhibits or abolishes the expression of the gene; iv) an inhibitory oligonucleotide that inhibits or abolishes the expression of the gene; v) a deletion of the endogenous gene; vi) the overexpressed or inactivated gene integrated into the germplasm of the plant cell or the plant; or vii) the overexpressed gene under soybean endogenous promoter and/or an exogenous promoter.

35 . The plant cell of claim 33 , comprising an overexpressed gene encoding a sulfite exporter TauE/SafE protein and/or an overexpressed gene encoding a SNARE associated Golgi protein and/or their homologous genes.

36 . The plant cell of claim 35 , wherein the gene encoding the sulfite exporter TauE/SafE protein comprises a protein coding sequence of Glyma.11G004900 (SEQ ID NO: 1) or a homolog thereof and/or the gene encoding the SNARE associated Golgi protein comprises a protein coding sequence of Glyma.14G142500 (SEQ ID NO: 2) or a homolog thereof.

37 . The plant cell of claim 33 , wherein a gene encoding an aspartate aminotransferase protein is inactivated and/or a gene encoding a transcription regulator of the NOT2/NOT3/NOT5 protein is inactivated.

38 . The plant cell of claim 37 , wherein a gene encoding an aspartate aminotransferase protein comprising the protein coding sequence of Glyma.17G216000 (SEQ ID NO: 3) is inactivated and/or a gene encoding a transcription regulator of the NOT2/NOT3/NOT5 protein comprising the protein coding sequence of Glyma.02G071300 (SEQ ID NO: 4) is inactivated.

39 . The plant cell of claim 33 , wherein the plant cell is in a plant part.

40 . The plant cell of claim 39 , wherein the plant part is a seed, endosperm, ovule or pollen.

41 . The plant cell of claim 33 , wherein the plant is a soybean plant or other cyst nematode-host plants.

42 . A plant cell comprising an overexpressed gene, wherein the overexpressed gene encodes an miRNA comprising the sequence of SEQ ID NO: 210 or a homolog thereof.

43 . The plant cell of claim 42 , wherein the plant cell comprises:
i) in the endogenous promoter of the gene one or more mutations that increase the expression of the gene; ii) a heterologous nucleic acid comprising the gene; iii) the overexpressed gene integrated into the germplasm of the plant cell or the plant; and/or iv) the overexpressed gene under soybean endogenous promoter and/or an exogenous promoter.

44 . The plant cell of claim 42 , wherein the plant cell is in a plant part.

45 . The plant cell of claim 44 , wherein the plant part is a seed, endosperm, ovule or pollen.

46 . The plant cell of claim 44 , wherein the plant is a soybean plant or other cyst nematode-host plants.

47 . A plant cell or a plant comprising one or more genetic polymorphisms selected from the polymorphisms provided in Table 8, wherein the one or more genetic polymorphisms render the plant cell or the plant resist to an SCN infection.

48 . A method of producing a plant cell or a plant of claim 47 , the method comprising editing the genome of a plant cell or a plant that is susceptible to an SCN infection to replace one or more polymorphisms in an SCN susceptible plant cell or a plant with one or more polymorphisms that confer resistance to an SCN infection.

49 . An isolated nucleic acid sequence comprising the sequence of SEQ ID NO: 211, 212 or 213 or a fragment thereof.

50 . The isolated nucleic acid sequence of claim 49 , said nucleic acid sequence comprising SEQ ID NO: 211, 212 or 213 or a fragment thereof, wherein the sequence comprises one or more polymorphisms that are associated with resistance to an SCN infection as provided in Table 8.

Assignees

• Univ Tennessee Res Found

Inventors

• Hewezi Tarek Abdel
• Rambani Aditi
• Pantalone Vincent R
• Rice J Hollis

Classifications

• Y02A40/146

  Genetically Modified [GMO] plants, e.g. transgenic plants · CPC title

• A01H5/10 Primary

  Seeds · CPC title

• C12Q2600/154

  Methylation markers · CPC title

• C07K14/415

  from plants · CPC title

• C12Q2600/158

  Expression markers · CPC title